INNER CODE UNIT · C++

combined_seq

soedinglab/plass · lib/flash/combine_reads.cpp:371

    combined_seq = combined_read->seq;
    combined_qual = combined_read->qual;

    combined_read->seq_len = combined_seq_len;
    combined_read->qual_len = combined_seq_len;

    /* Copy the beginning of read 1 (not in the overlapped region).  */
    while (overlap_begin--) {
        *combined_seq++ = *seq_1++;
        *combined_qual++ = *qual_1++;
    }

    /* Copy the overlapped region.  */
    while (overlap_len--) {
        if (*seq_1 == *seq_2) {
            /* Same base in both reads.  Take the higher quality
             * value. */
            *combined_seq = *seq_1;

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